Rainbow: an integrated tool for efficient clustering and assembling RAD-seq reads
Rainbow is developed to provide an ultra-fast and memory-efficien...ults. Based on simulation and a real guppy RAD-seq data, we show that Rainbow is more...etent than the other tools in dealing with RAD-seq data2083 days ago
KOBAS: a web server for gene/protein functional annotation and functional gene set enrichment
KOBAS 3.0 is a web server for gene/protein functional annotation...erates annotations for each gene based on multiple databases about pathways, diseases...it can accept either gene list or gene expression data as input, and generates enric...2083 days ago
2078 days ago
Platypus: A Haplotype-Based Variant Caller For Next Generation Sequence Data
Platypus is a tool designed for efficient and accurate variant-detection in high-throughput sequencing data. By using local realignment o... exon-capture, and targeted capture data, it has been run on very larg...2078 days ago
vcfR: a package to manipulate and visualize VCF data in R
VcfR is an R package intended to allow easy manipula...lization of variant call format (VCF) data. Functions are provided to ra...from and write to VCF files. Once VCF data is read into R a parser funct...ions provide visualization of genomic data. Once processing is complete...2077 days ago
Scribl : HTML5 canvas genomics graphic library
Scribl is a javascript, Canvas-based graphics library that easily generates biological visuals of genomic regions, alignments, and assembly data. Scribl can also be used in conventional offline pipelines, since everything needed to generate charts can be contained in a single html file.2077 days ago
BamView: a free interactive display of read alignments in BAM data files
To run the application on UNIX from the downloaded jar file run the UNIX: java -mx512m -jar BamView.jar and extra command line options are given when '-h' is used:...2062 days ago
2062 days ago
lordFAST: sensitive and Fast Alignment Search Tool for LOng noisy Read sequencing Data
lordFAST is a sensitive tool for mapping long reads with high error rates. lordFAST is specially designed for aligning reads from PacBio sequencing technology but prov...2045 days ago
SISRS: Site Identification from Short Read Sequences
Next-gen sequence data such as Illumina HiSeq reads. Data must be sorted into folders by taxon (e.g. species or genus). Paired reads in fastq format must be specified by _R1 and _R2 in the (otherwise identical) filenames. Paired and unpaired reads must have a fastq file extension.2043 days ago